Brain Rhythms

Welcome to a brief introduction on modeling brain rhythms in BMTK and NEURON.

Table of contents

• [gamma] - NEURON code for previewing a simple excitatory/inhibitory loop
  • [modfiles/] - current channel definitions. COMPILE before running hoc interfaces with nrnivmodl or mknrndll
  • cell_tester_rtm.hoc - single RTM excitatory cell interface
  • cell_tester_wb.hoc - single WB inhibitory cell interface
  • network_tester_2_cell.hoc - two cell interface, RTM/WB loop with current injection
• [stochastic_weak_ping] - BMTK notebook for testing excitatory/inhibitory network used to generate gamma rhythms
  • sw_ping.ipynb - main jupyter notebook
• [realistic_rhythm] - BMTK notebook for testing a 3 layer cortex network that generates gamma rhythms
  • realistic.ipynb - main jupyter notebook
• [theta] - NEURON code for previewing a simple excitatory/inhibitory/OLM cells used to generate theta
  • [modfiles/] - current channel definitions. COMPILE before running hoc interfaces with nrnivmodl or mknrndll
  • cell_tester_rtm.hoc - single RTM excitatory cell interface
  • cell_tester_wb.hoc - single WB inhibitory cell interface
  • cell_tester_olm_pre.hoc - single OLM inhibitory cell interface with Na/K channels only
  • cell_tester_olm_h.hoc - single OLM inhibitory cell interface with Na/K/h channels
  • cell_tester_olm_ha.hoc - single OLM inhibitory cell interface with Na/K/h/A channels
• [eio_theta_network] - BMTK notebook for testing excitatory/inhibitory/OLM network used to generate theta and gamma rhythms
  • eio.ipynb - main jupyter notebook